SMTL ID : 7uqb.1

Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state from a SPB1-D52A strain with AlF4

Coordinates
PDB Format
Method
ELECTRON MICROSCOPY
Oligo State
hetero-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-mer
Ligands
3 x B3P: 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)(Non-covalent)
81 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)
5 x ZN: ZINC ION(Non-covalent)
2 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)
1 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)
1 x K: POTASSIUM ION(Non-covalent)
Links
RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP
Citation
Sekulski, K. et al., rRNA methylation by Spb1 regulates the GTPase activity of Nog2 during 60S ribosomal subunit assembly. Nat Commun (2023)
Release Date
2023-03-15
Peptides
60S ribosomal protein L2-A: A
rRNA-processing protein: E
60S ribosomal protein L12-A: G
Ribosome biogenesis protein ALB1: H
60S ribosomal protein L3: I
60S ribosomal protein L4-A: J
60S ribosomal protein L5: K
60S ribosomal protein L6-A: L
60S ribosomal protein L7-A: M
60S ribosomal protein L8-A: N
60S ribosomal protein L9-A: O
Bud site selection protein 20: P
60S ribosomal protein L11-A: Q
Proteasome-interacting protein CIC1: R
60S ribosomal protein L13-A: S
60S ribosomal protein L14-A: T
60S ribosomal protein L15-A: U
60S ribosomal protein L16-A: V
60S ribosomal protein L17-A: W
60S ribosomal protein L18-A: X
60S ribosomal protein L19-A: Y
60S ribosomal protein L20-A: Z
60S ribosomal protein L21-A: 0
60S ribosomal protein L22-A: 1
60S ribosomal protein L23-A: 2
Ribosome assembly factor MRT4: 3
60S ribosomal protein L25: 4
60S ribosomal protein L26-A: 5
60S ribosomal protein L27-A: 6
60S ribosomal protein L28: 7
Nucleolar GTP-binding protein 1: 8
60S ribosomal protein L30: 9
60S ribosomal protein L31-A: a
60S ribosomal protein L32: b
60S ribosomal protein L33-A: c
60S ribosomal protein L34-A: d
60S ribosomal protein L35-A: e
60S ribosomal protein L36-A: f
60S ribosomal protein L37-A: g
60S ribosomal protein L38: h
60S ribosomal protein L39: i
Nucleolar GTP-binding protein 2: j
Pescadillo homolog: k
Ribosome biogenesis protein 15: l
60S ribosomal protein L43-A: m
Ribosome biogenesis protein NOP53: n
Ribosome biogenesis protein NSA2: o
Nuclear GTP-binding protein NUG1: p
Ribosome biogenesis protein RLP7: q
Ribosome biogenesis protein RLP24: r
Ribosome production factor 2 homolog: s
Ribosome biogenesis regulatory protein: t
RSA4 isoform 1: u
Eukaryotic translation initiation factor 6: v
UPF0642 protein YBL028C: w
Probable metalloprotease ARX1: x
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
E
5
G
8
H
9
I
B
J
C
K
D
L
E
M
F
N
G
O
H
P
I
Q
J
R
K
S
L
T
M
U
N
V
O
W
P
X
Q
Y
R
Z
S
0
T
1
U
2
V
3
W
4
X
5
Y
6
Z
7
a
8
b
9
c
a
d
b
e
c
f
d
g
e
h
f
i
g
j
h
k
i
l
j
m
k
n
l
o
m
p
n
q
o
r
p
s
q
t
r
u
s
v
t
w
u
x
v
y
w
z
x
4

60S ribosomal protein L2-A

rRNA-processing protein

60S ribosomal protein L12-A

Ribosome biogenesis protein ALB1

60S ribosomal protein L3

60S ribosomal protein L4-A

60S ribosomal protein L5

60S ribosomal protein L6-A

60S ribosomal protein L7-A

60S ribosomal protein L8-A

60S ribosomal protein L9-A

Bud site selection protein 20

60S ribosomal protein L11-A

Proteasome-interacting protein CIC1

60S ribosomal protein L13-A

60S ribosomal protein L14-A

60S ribosomal protein L15-A

60S ribosomal protein L16-A

60S ribosomal protein L17-A

60S ribosomal protein L18-A

60S ribosomal protein L19-A

60S ribosomal protein L20-A

60S ribosomal protein L21-A

60S ribosomal protein L22-A

60S ribosomal protein L23-A

Ribosome assembly factor MRT4

60S ribosomal protein L25

60S ribosomal protein L26-A

60S ribosomal protein L27-A

60S ribosomal protein L28

Nucleolar GTP-binding protein 1

60S ribosomal protein L30

60S ribosomal protein L31-A

60S ribosomal protein L32

60S ribosomal protein L33-A

60S ribosomal protein L34-A

60S ribosomal protein L35-A

60S ribosomal protein L36-A

60S ribosomal protein L37-A

60S ribosomal protein L38

60S ribosomal protein L39

Nucleolar GTP-binding protein 2

Pescadillo homolog

Ribosome biogenesis protein 15

60S ribosomal protein L43-A

Ribosome biogenesis protein NOP53

Ribosome biogenesis protein NSA2

Nuclear GTP-binding protein NUG1

Ribosome biogenesis protein RLP7

Ribosome biogenesis protein RLP24

Ribosome production factor 2 homolog

Ribosome biogenesis regulatory protein

RSA4 isoform 1

Eukaryotic translation initiation factor 6

UPF0642 protein YBL028C

Probable metalloprotease ARX1

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